{"id":"https://openalex.org/W4286001079","doi":"https://doi.org/10.1093/bioinformatics/btac518","title":"High-dimension to high-dimension screening for detecting genome-wide epigenetic and noncoding RNA regulators of gene expression","display_name":"High-dimension to high-dimension screening for detecting genome-wide epigenetic and noncoding RNA regulators of gene expression","publication_year":2022,"publication_date":"2022-07-20","ids":{"openalex":"https://openalex.org/W4286001079","doi":"https://doi.org/10.1093/bioinformatics/btac518","pmid":"https://pubmed.ncbi.nlm.nih.gov/35856716"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac518","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac518","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9438953","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040400399","display_name":"Hongjie Ke","orcid":null},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hongjie Ke","raw_affiliation_strings":["Department of Epidemiology and Biostatistics, University of Maryland , College Park, MD 20742, USA"],"affiliations":[{"raw_affiliation_string":"Department of Epidemiology and Biostatistics, University of Maryland , College Park, MD 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103104425","display_name":"Zhao Ren","orcid":"https://orcid.org/0000-0001-8096-5248"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhao Ren","raw_affiliation_strings":["Department of Statistics, University of Pittsburgh , Pittsburgh, PA 15260, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Pittsburgh , Pittsburgh, PA 15260, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024259730","display_name":"Jianfei Qi","orcid":"https://orcid.org/0000-0001-7884-7656"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jianfei Qi","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Maryland , Baltimore, MD 21201, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Maryland , Baltimore, MD 21201, USA","institution_ids":["https://openalex.org/I126744593"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100366879","display_name":"Shuo Chen","orcid":"https://orcid.org/0000-0002-7990-4947"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shuo Chen","raw_affiliation_strings":["Department of Epidemiology & Public Health, University of Maryland , Baltimore, MD 21201, USA"],"affiliations":[{"raw_affiliation_string":"Department of Epidemiology & Public Health, University of Maryland , Baltimore, MD 21201, USA","institution_ids":["https://openalex.org/I126744593"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023821329","display_name":"George C. Tseng","orcid":"https://orcid.org/0000-0002-5447-1014"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George C Tseng","raw_affiliation_strings":["Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15260, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15260, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069555575","display_name":"Zhenyao Ye","orcid":"https://orcid.org/0000-0002-6530-1088"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhenyao Ye","raw_affiliation_strings":["Department of Epidemiology & Public Health, University of Maryland , Baltimore, MD 21201, USA"],"affiliations":[{"raw_affiliation_string":"Department of Epidemiology & Public Health, University of Maryland , Baltimore, MD 21201, USA","institution_ids":["https://openalex.org/I126744593"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059242731","display_name":"Tianzhou Ma","orcid":"https://orcid.org/0000-0003-3605-0811"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Tianzhou Ma","raw_affiliation_strings":["Department of Epidemiology and Biostatistics, University of Maryland , College Park, MD 20742, USA"],"affiliations":[{"raw_affiliation_string":"Department of Epidemiology and Biostatistics, University of Maryland , College Park, MD 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5059242731"],"corresponding_institution_ids":["https://openalex.org/I66946132"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5694,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.60653876,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"38","issue":"17","first_page":"4078","last_page":"4087"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.6662877202033997},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5706325769424438},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5444076061248779},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.4909115433692932},{"id":"https://openalex.org/keywords/long-non-coding-rna","display_name":"Long non-coding RNA","score":0.48061317205429077},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.46235379576683044},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4466094970703125},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.44234713912010193},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.428719162940979},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.4170755445957184},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3744959831237793},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3705507814884186},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.32049494981765747}],"concepts":[{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.6662877202033997},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5706325769424438},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5444076061248779},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.4909115433692932},{"id":"https://openalex.org/C62203573","wikidata":"https://www.wikidata.org/wiki/Q15087973","display_name":"Long non-coding RNA","level":4,"score":0.48061317205429077},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.46235379576683044},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4466094970703125},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.44234713912010193},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.428719162940979},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.4170755445957184},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3744959831237793},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3705507814884186},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.32049494981765747}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btac518","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac518","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35856716","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35856716","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9438953","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9438953","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:9438953","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9438953","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3105157427","display_name":null,"funder_award_id":"DMS-2113568","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320310174","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305"},{"id":"https://openalex.org/F4320337347","display_name":"National Institute on Drug Abuse","ror":"https://ror.org/00fq5cm18"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":69,"referenced_works":["https://openalex.org/W1560240297","https://openalex.org/W1635119602","https://openalex.org/W1660390307","https://openalex.org/W1972218893","https://openalex.org/W1974450480","https://openalex.org/W1985359974","https://openalex.org/W1985444222","https://openalex.org/W1986861649","https://openalex.org/W2001334414","https://openalex.org/W2010691380","https://openalex.org/W2012309718","https://openalex.org/W2014665031","https://openalex.org/W2016119924","https://openalex.org/W2025983204","https://openalex.org/W2029372290","https://openalex.org/W2052574531","https://openalex.org/W2066710189","https://openalex.org/W2084649117","https://openalex.org/W2096330673","https://openalex.org/W2103017472","https://openalex.org/W2103151642","https://openalex.org/W2104363560","https://openalex.org/W2105528101","https://openalex.org/W2109816625","https://openalex.org/W2110065044","https://openalex.org/W2122825543","https://openalex.org/W2130561717","https://openalex.org/W2135046866","https://openalex.org/W2137892504","https://openalex.org/W2150002853","https://openalex.org/W2153248764","https://openalex.org/W2154560360","https://openalex.org/W2157968886","https://openalex.org/W2159380507","https://openalex.org/W2159482845","https://openalex.org/W2164092415","https://openalex.org/W2169847599","https://openalex.org/W2171304795","https://openalex.org/W2219596071","https://openalex.org/W2253799652","https://openalex.org/W2329659234","https://openalex.org/W2463708289","https://openalex.org/W2470530820","https://openalex.org/W2494121918","https://openalex.org/W2562162676","https://openalex.org/W2594844287","https://openalex.org/W2761275051","https://openalex.org/W2767377392","https://openalex.org/W2785792383","https://openalex.org/W2791700952","https://openalex.org/W2796207353","https://openalex.org/W2898932164","https://openalex.org/W2949427672","https://openalex.org/W2963573190","https://openalex.org/W2963912472","https://openalex.org/W2979685185","https://openalex.org/W2995898384","https://openalex.org/W3005587360","https://openalex.org/W3037375665","https://openalex.org/W3098713891","https://openalex.org/W3107677589","https://openalex.org/W3115880421","https://openalex.org/W3194932332","https://openalex.org/W3200768776","https://openalex.org/W4294216483","https://openalex.org/W4294358748","https://openalex.org/W6679222004","https://openalex.org/W6680564993","https://openalex.org/W6745634772"],"related_works":["https://openalex.org/W2214376880","https://openalex.org/W3212149434","https://openalex.org/W2073893804","https://openalex.org/W2291484187","https://openalex.org/W2547129954","https://openalex.org/W1924910987","https://openalex.org/W2205411991","https://openalex.org/W3146486132","https://openalex.org/W2276469649","https://openalex.org/W3031361789"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}